Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS08315

Experiment: D-Glucosamine Hydrochloride 10 mM (C)

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Only strains with sufficient reads to estimate fitness are shown, but the strain fitness values are still rather noisy and may be biased towards zero. Strains near the edge of a gene are not shown as being associated with that gene (they are in grey). Strains in the central 10-90% of a gene are color coded by the insertion's strand. Usually, "+" means that the selectable marker is encoded on the forward strand, i.e., transcribed rightward.

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500 ntHMPREF1058_RS08325 and HMPREF1058_RS08320 overlap by 4 nucleotidesHMPREF1058_RS08320 and HMPREF1058_RS08315 are separated by 6 nucleotidesHMPREF1058_RS08315 and HMPREF1058_RS08310 are separated by 9 nucleotidesHMPREF1058_RS08310 and HMPREF1058_RS08305 are separated by 3 nucleotides HMPREF1058_RS08325: HMPREF1058_RS08325 - pyridoxine 5'-phosphate synthase, at 1,192,587 to 1,193,303 _RS08325 HMPREF1058_RS08320: HMPREF1058_RS08320 - MotA/TolQ/ExbB proton channel family protein, at 1,193,300 to 1,194,016 _RS08320 HMPREF1058_RS08315: HMPREF1058_RS08315 - biopolymer transporter ExbD, at 1,194,023 to 1,194,442 _RS08315 HMPREF1058_RS08310: HMPREF1058_RS08310 - TonB family protein, at 1,194,452 to 1,195,345 _RS08310 HMPREF1058_RS08305: HMPREF1058_RS08305 - DJ-1/PfpI family protein, at 1,195,349 to 1,195,900 _RS08305 Position (kb) 1194 1195Strain fitness (log2 ratio) -3 -2 -1 0 1at 1193.103 kb on - strand, within HMPREF1058_RS08325at 1193.104 kb on + strand, within HMPREF1058_RS08325at 1193.183 kb on + strand, within HMPREF1058_RS08325at 1193.250 kb on + strandat 1193.250 kb on + strandat 1193.251 kb on - strandat 1193.270 kb on + strandat 1193.282 kb on + strandat 1193.472 kb on - strand, within HMPREF1058_RS08320at 1193.530 kb on + strand, within HMPREF1058_RS08320at 1193.549 kb on + strand, within HMPREF1058_RS08320at 1193.581 kb on - strand, within HMPREF1058_RS08320at 1193.585 kb on + strand, within HMPREF1058_RS08320at 1193.635 kb on + strand, within HMPREF1058_RS08320at 1193.694 kb on + strand, within HMPREF1058_RS08320at 1193.694 kb on + strand, within HMPREF1058_RS08320at 1193.695 kb on - strand, within HMPREF1058_RS08320at 1193.695 kb on - strand, within HMPREF1058_RS08320at 1193.855 kb on - strand, within HMPREF1058_RS08320at 1193.872 kb on + strand, within HMPREF1058_RS08320at 1193.925 kb on - strand, within HMPREF1058_RS08320at 1193.925 kb on - strand, within HMPREF1058_RS08320at 1194.014 kb on + strandat 1194.017 kb on + strandat 1194.056 kb on - strandat 1194.088 kb on - strand, within HMPREF1058_RS08315at 1194.088 kb on - strand, within HMPREF1058_RS08315at 1194.150 kb on + strand, within HMPREF1058_RS08315at 1194.150 kb on + strand, within HMPREF1058_RS08315at 1194.201 kb on + strand, within HMPREF1058_RS08315at 1194.228 kb on - strand, within HMPREF1058_RS08315at 1194.316 kb on + strand, within HMPREF1058_RS08315at 1194.320 kb on + strand, within HMPREF1058_RS08315at 1194.320 kb on + strand, within HMPREF1058_RS08315at 1194.321 kb on - strand, within HMPREF1058_RS08315at 1194.321 kb on - strand, within HMPREF1058_RS08315at 1194.321 kb on - strand, within HMPREF1058_RS08315at 1194.447 kb on + strandat 1194.447 kb on + strandat 1194.448 kb on - strandat 1194.463 kb on + strandat 1194.493 kb on - strandat 1194.501 kb on + strandat 1194.501 kb on + strandat 1194.501 kb on + strandat 1194.620 kb on - strand, within HMPREF1058_RS08310at 1194.633 kb on + strand, within HMPREF1058_RS08310at 1194.633 kb on + strand, within HMPREF1058_RS08310at 1194.633 kb on + strand, within HMPREF1058_RS08310at 1194.633 kb on + strand, within HMPREF1058_RS08310at 1194.633 kb on + strand, within HMPREF1058_RS08310at 1194.633 kb on + strand, within HMPREF1058_RS08310at 1194.634 kb on - strand, within HMPREF1058_RS08310at 1194.634 kb on - strand, within HMPREF1058_RS08310at 1194.634 kb on - strand, within HMPREF1058_RS08310at 1194.638 kb on - strand, within HMPREF1058_RS08310at 1194.640 kb on - strand, within HMPREF1058_RS08310at 1194.640 kb on - strand, within HMPREF1058_RS08310at 1194.673 kb on - strand, within HMPREF1058_RS08310at 1195.133 kb on + strand, within HMPREF1058_RS08310at 1195.133 kb on + strand, within HMPREF1058_RS08310at 1195.176 kb on + strand, within HMPREF1058_RS08310at 1195.219 kb on + strand, within HMPREF1058_RS08310at 1195.225 kb on + strand, within HMPREF1058_RS08310at 1195.315 kb on + strandat 1195.321 kb on + strandat 1195.321 kb on + strandat 1195.325 kb on + strandat 1195.328 kb on + strandat 1195.328 kb on + strandat 1195.348 kb on + strandat 1195.361 kb on + strandat 1195.361 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction D-Glucosamine Hydrochloride 10 mM (C)
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1,193,103 - HMPREF1058_RS08325 0.72 -0.7
1,193,104 + HMPREF1058_RS08325 0.72 -0.2
1,193,183 + HMPREF1058_RS08325 0.83 -0.6
1,193,250 + -1.3
1,193,250 + -0.7
1,193,251 - -1.9
1,193,270 + -0.9
1,193,282 + -0.4
1,193,472 - HMPREF1058_RS08320 0.24 -0.6
1,193,530 + HMPREF1058_RS08320 0.32 -0.9
1,193,549 + HMPREF1058_RS08320 0.35 -0.1
1,193,581 - HMPREF1058_RS08320 0.39 +0.0
1,193,585 + HMPREF1058_RS08320 0.40 +0.3
1,193,635 + HMPREF1058_RS08320 0.47 -0.1
1,193,694 + HMPREF1058_RS08320 0.55 +0.0
1,193,694 + HMPREF1058_RS08320 0.55 +0.6
1,193,695 - HMPREF1058_RS08320 0.55 -1.7
1,193,695 - HMPREF1058_RS08320 0.55 -1.6
1,193,855 - HMPREF1058_RS08320 0.77 +0.3
1,193,872 + HMPREF1058_RS08320 0.80 -0.3
1,193,925 - HMPREF1058_RS08320 0.87 +0.1
1,193,925 - HMPREF1058_RS08320 0.87 +0.4
1,194,014 + -3.4
1,194,017 + -2.1
1,194,056 - -1.6
1,194,088 - HMPREF1058_RS08315 0.15 -0.3
1,194,088 - HMPREF1058_RS08315 0.15 -0.7
1,194,150 + HMPREF1058_RS08315 0.30 -0.6
1,194,150 + HMPREF1058_RS08315 0.30 -1.0
1,194,201 + HMPREF1058_RS08315 0.42 -0.7
1,194,228 - HMPREF1058_RS08315 0.49 -0.4
1,194,316 + HMPREF1058_RS08315 0.70 -1.2
1,194,320 + HMPREF1058_RS08315 0.71 -0.6
1,194,320 + HMPREF1058_RS08315 0.71 -0.3
1,194,321 - HMPREF1058_RS08315 0.71 -1.0
1,194,321 - HMPREF1058_RS08315 0.71 -0.7
1,194,321 - HMPREF1058_RS08315 0.71 -2.2
1,194,447 + +0.8
1,194,447 + -0.8
1,194,448 - -0.6
1,194,463 + -1.5
1,194,493 - -1.3
1,194,501 + -0.7
1,194,501 + -1.1
1,194,501 + -0.7
1,194,620 - HMPREF1058_RS08310 0.19 -0.9
1,194,633 + HMPREF1058_RS08310 0.20 -1.9
1,194,633 + HMPREF1058_RS08310 0.20 -0.7
1,194,633 + HMPREF1058_RS08310 0.20 +0.8
1,194,633 + HMPREF1058_RS08310 0.20 -0.6
1,194,633 + HMPREF1058_RS08310 0.20 -0.3
1,194,633 + HMPREF1058_RS08310 0.20 -1.2
1,194,634 - HMPREF1058_RS08310 0.20 -0.8
1,194,634 - HMPREF1058_RS08310 0.20 +0.1
1,194,634 - HMPREF1058_RS08310 0.20 -0.7
1,194,638 - HMPREF1058_RS08310 0.21 -1.6
1,194,640 - HMPREF1058_RS08310 0.21 +0.6
1,194,640 - HMPREF1058_RS08310 0.21 +0.3
1,194,673 - HMPREF1058_RS08310 0.25 +0.9
1,195,133 + HMPREF1058_RS08310 0.76 -0.6
1,195,133 + HMPREF1058_RS08310 0.76 -1.7
1,195,176 + HMPREF1058_RS08310 0.81 -1.4
1,195,219 + HMPREF1058_RS08310 0.86 +0.1
1,195,225 + HMPREF1058_RS08310 0.86 -0.8
1,195,315 + -1.7
1,195,321 + +0.6
1,195,321 + +0.5
1,195,325 + -0.6
1,195,328 + -1.2
1,195,328 + -0.7
1,195,348 + +0.4
1,195,361 + +0.2
1,195,361 + +0.7

Or see this region's nucleotide sequence